Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 12:31:44 -0400 (Tue, 09 Apr 2019).
Package 431/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
diffuStats 1.3.1 Sergio Picart-Armada
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: diffuStats |
Version: 1.3.1 |
Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:diffuStats.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings diffuStats_1.3.1.tar.gz |
StartedAt: 2019-04-09 02:19:49 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 02:21:58 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 129.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: diffuStats.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:diffuStats.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings diffuStats_1.3.1.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/diffuStats.Rcheck' * using R Under development (unstable) (2019-03-09 r76216) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'diffuStats/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'diffuStats' version '1.3.1' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'diffuStats' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * loading checks for arch 'i386' ** checking whether the package can be loaded ... OK ** checking whether the package can be loaded with stated dependencies ... OK ** checking whether the package can be unloaded cleanly ... OK ** checking whether the namespace can be loaded with stated dependencies ... OK ** checking whether the namespace can be unloaded cleanly ... OK * loading checks for arch 'x64' ** checking whether the package can be loaded ... OK ** checking whether the package can be loaded with stated dependencies ... OK ** checking whether the package can be unloaded cleanly ... OK ** checking whether the namespace can be loaded with stated dependencies ... OK ** checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements. * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking compiled code ... NOTE Note: information on .o files for i386 is not available Note: information on .o files for x64 is not available File 'C:/Users/biocbuild/bbs-3.9-bioc/R/library/diffuStats/libs/i386/diffuStats.dll': Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) Found 'exit', possibly from 'exit' (C), 'stop' (Fortran) Found 'printf', possibly from 'printf' (C) File 'C:/Users/biocbuild/bbs-3.9-bioc/R/library/diffuStats/libs/x64/diffuStats.dll': Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) Found 'exit', possibly from 'exit' (C), 'stop' (Fortran) Found 'printf', possibly from 'printf' (C) Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs. The detected symbols are linked into the code but might come from libraries and not actually be called. See 'Writing portable packages' in the 'Writing R Extensions' manual. * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... Running 'testthat.R' OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in 'inst/doc' ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See 'C:/Users/biocbuild/bbs-3.9-bioc/meat/diffuStats.Rcheck/00check.log' for details.
diffuStats.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/diffuStats_1.3.1.tar.gz && rm -rf diffuStats.buildbin-libdir && mkdir diffuStats.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=diffuStats.buildbin-libdir diffuStats_1.3.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL diffuStats_1.3.1.zip && rm diffuStats_1.3.1.tar.gz diffuStats_1.3.1.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 134k 100 134k 0 0 2538k 0 --:--:-- --:--:-- --:--:-- 2922k install for i386 * installing *source* package 'diffuStats' ... ** libs C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/include" -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/include" -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mtune=generic -c diffuse_parallel.cpp -o diffuse_parallel.o diffuse_parallel.cpp: In function 'arma::sp_mat convertSparse(Rcpp::S4)': diffuse_parallel.cpp:28:84: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117) [-Wdeprecated-declarations] arma::access::rw(res.values) = arma::memory::acquire_chunked<double>(x.size() + 1); ^ diffuse_parallel.cpp:32:94: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = unsigned int; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117) [-Wdeprecated-declarations] arma::access::rw(res.row_indices) = arma::memory::acquire_chunked<arma::uword>(i.size() + 1); ^ diffuse_parallel.cpp: In function 'arma::sp_mat sparsify2(const mat&, int, const sp_mat&)': diffuse_parallel.cpp:69:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < pos.size(); ++i) { ^ C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/include" -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c init.c -o init.o C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o diffuStats.dll tmp.def RcppExports.o diffuse_parallel.o init.o -LC:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/lib/i386 -ltbb -ltbbmalloc -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/i386 -lR installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/diffuStats.buildbin-libdir/00LOCK-diffuStats/00new/diffuStats/libs/i386 ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'diffuStats' finding HTML links ... done ParallelHeatrank html checks html connect_undirected_graph html convertSparse html default_graph_param html diffuStats html diffuse html diffuse_mc html diffuse_raw html generate_graph html generate_input html graph_toy html is_kernel html kernels html largest_cc html metric_auc html named.list html perf html perf_eval html perf_wilcox html scores2colours html scores2shapes html serialHeatrank html sparsify2 html to_list html to_x_from_list html which_format html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'diffuStats' ... ** libs C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/include" -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mtune=generic -c RcppExports.cpp -o RcppExports.o C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/include" -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mtune=generic -c diffuse_parallel.cpp -o diffuse_parallel.o diffuse_parallel.cpp: In function 'arma::sp_mat convertSparse(Rcpp::S4)': diffuse_parallel.cpp:28:84: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117) [-Wdeprecated-declarations] arma::access::rw(res.values) = arma::memory::acquire_chunked<double>(x.size() + 1); ^ diffuse_parallel.cpp:32:94: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = unsigned int; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117) [-Wdeprecated-declarations] arma::access::rw(res.row_indices) = arma::memory::acquire_chunked<arma::uword>(i.size() + 1); ^ diffuse_parallel.cpp: In function 'arma::sp_mat sparsify2(const mat&, int, const sp_mat&)': diffuse_parallel.cpp:69:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i = 0; i < pos.size(); ++i) { ^ C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/include" -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c init.c -o init.o C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o diffuStats.dll tmp.def RcppExports.o diffuse_parallel.o init.o -LC:/Users/biocbuild/bbs-3.9-bioc/R/library/RcppParallel/lib/x64 -ltbb -ltbbmalloc -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/x64 -lR installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/diffuStats.buildbin-libdir/diffuStats/libs/x64 ** testing if installed package can be loaded * MD5 sums packaged installation of 'diffuStats' as diffuStats_1.3.1.zip * DONE (diffuStats) * installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library' package 'diffuStats' successfully unpacked and MD5 sums checked
diffuStats.Rcheck/tests_i386/testthat.Rout R Under development (unstable) (2019-03-09 r76216) -- "Unsuffered Consequences" Copyright (C) 2019 The R Foundation for Statistical Computing Platform: i386-w64-mingw32/i386 (32-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(diffuStats) > > test_check("diffuStats") == testthat results =========================================================== OK: 208 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 26.48 2.31 12.54 |
diffuStats.Rcheck/tests_x64/testthat.Rout R Under development (unstable) (2019-03-09 r76216) -- "Unsuffered Consequences" Copyright (C) 2019 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(diffuStats) > > test_check("diffuStats") == testthat results =========================================================== OK: 208 SKIPPED: 0 FAILED: 0 > > proc.time() user system elapsed 24.56 2.59 12.43 |
diffuStats.Rcheck/examples_i386/diffuStats-Ex.timings
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diffuStats.Rcheck/examples_x64/diffuStats-Ex.timings
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